Locus 314

Sequence ID	3L_DroMel_CAF1
Location	920,728 – 920,859
Length	131
Max. P	0.610640

overview

Window 0

Location	920,728 – 920,824
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	84.78
Mean single sequence MFE	-28.74
Consensus MFE	-19.40
Energy contribution	-19.24
Covariance contribution	-0.16
Combinations/Pair	1.18
Mean z-score	-1.82
Structure conservation index	0.68
SVM decision value	0.16
SVM RNA-class probability	0.610640
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 920728 96 + 23771897
CGAGAGUCUCUCCCUUCUUCACAACUGAAAGAGCUGUUUUUGACAGCUCGCACUUGGAUGCCUCAAAGGACAUCAGGCACACAAAUUUUCCUAAGC
.((((((.....(((......(((.((...((((((((...)))))))).)).)))((((((.....)).))))))).......))))))...... ( -24.10)
>DroSec_CAF1 55758 92 + 1
CGAUAGGCUCUCCCUUCUUCAGAG--AGAAGAGCUGUCUGUGACAGCUCGCACUCGGAUGCCUCAAAGGACAUUAGGCACACA--CUUUCCUAAGC
...(((((((((.........)))--))..((((((((...))))))))((.((..((((((.....)).)))))))).....--....))))... ( -27.30)
>DroSim_CAF1 48751 92 + 1
CGAUAGGCUCUCCCUUCUUCAGAG--AGAAGAGCUGUCUUUGACAGCUCCCACUCAUAUGCCUCAAGGGAGAUUAGGCACACA--CUUUCCUAAGC
......((((((((((...((..(--((..((((((((...))))))))...)))...))....))))))))(((((......--....))))))) ( -29.10)
>DroEre_CAF1 59105 94 + 1
CGAGAGGCUAUCCCCUCAUCACAGCUGGAAGAGCUGUCUUUGACAGCUCGCACUCGGUUGCCUCGAAGGACAUUGGGCACACA--CUUUCCCAAGC
.((((((......)))).))...(((((((((((((((...))))))))......(..((((.(((......)))))))..).--..))))..))) ( -30.70)
>DroYak_CAF1 58372 94 + 1
CGAGAGGCUCUGCCUUCAUCACAACGGGAGGAGCUGUCUUUGACAGCUCGCACUCGGUGGCCUCAAAGGACAUUGGGCACACA--CUUUCCUAAGG
.(((((((...)))))..))....((((.(((((((((...)))))))).).))))((((((.(((......)))))).))).--........... ( -32.50)
>consensus
CGAGAGGCUCUCCCUUCUUCACAGC_GGAAGAGCUGUCUUUGACAGCUCGCACUCGGAUGCCUCAAAGGACAUUAGGCACACA__CUUUCCUAAGC
.(((((........................((((((((...))))))))..........((((...........)))).......)))))...... (-19.40 = -19.24 +  -0.16)

alignment

secondary structure

dotplot

Window 1

Location	920,754 – 920,859
Length	105
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	82.29
Mean single sequence MFE	-31.42
Consensus MFE	-19.20
Energy contribution	-20.36
Covariance contribution	1.16
Combinations/Pair	1.19
Mean z-score	-1.87
Structure conservation index	0.61
SVM decision value	0.14
SVM RNA-class probability	0.600811
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 920754 105 - 23771897
GGUUGUAAACA---UAUGACAUAUAUUUUUUCUGUGUUGCUUAGGAAAAUUUGUGUGCCUGAUGUCCUUUGAGGCAUCCAAGUGCGAGCUGUCAAAAACAGCUCUUUC
.((..((....---))..)).......(((((((.......)))))))(((((..(((((.(.......).)))))..)))))..(((((((.....))))))).... ( -28.70)
>DroSec_CAF1 55782 103 - 1
UGUUGCAAACA---UAGGGCAUAUAUUUUUUCUGUGUGGCUUAGGAAAG--UGUGUGCCUAAUGUCCUUUGAGGCAUCCGAGUGCGAGCUGUCACAGACAGCUCUUCU
....(((.(((---(.((((((((((((((.(((.......))))))))--))))))))).)))).(((.((....)).))))))((((((((...)))))))).... ( -37.10)
>DroSim_CAF1 48775 103 - 1
GAUUGUAAACA---GAUGACUUAUAUUUUUUCUGUGUGGCUUAGGAAAG--UGUGUGCCUAAUCUCCCUUGAGGCAUAUGAGUGGGAGCUGUCAAAGACAGCUCUUCU
...........---....((((....((((((((.......))))))))--.((((((((...........))))))))))))((((((((((...)))))))))).. ( -28.30)
>DroEre_CAF1 59131 103 - 1
GCUCGCAAACA---UAUGACUAGUUUUUUCUCGGUGUGGCUUGGGAAAG--UGUGUGCCCAAUGUCCUUCGAGGCAACCGAGUGCGAGCUGUCAAAGACAGCUCUUCC
....((((((.---........)))....((((((.((.(((((((...--((......))...)))..)))).)))))))))))((((((((...)))))))).... ( -32.60)
>DroYak_CAF1 58398 105 - 1
GUUUCUAAACAAAGUAUCACAAAUAUUU-UUCGGUGUACCUUAGGAAAG--UGUGUGCCCAAUGUCCUUUGAGGCCACCGAGUGCGAGCUGUCAAAGACAGCUCCUCC
..........(((((((.....))))))-)((((((..((((((((...--((......))...))))..)))).))))))....((((((((...)))))))).... ( -30.40)
>consensus
GGUUGUAAACA___UAUGACAUAUAUUUUUUCUGUGUGGCUUAGGAAAG__UGUGUGCCUAAUGUCCUUUGAGGCAUCCGAGUGCGAGCUGUCAAAGACAGCUCUUCC
..................(((((...((((((((.......))))))))..)))))((((((......))).)))..........((((((((...)))))))).... (-19.20 = -20.36 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:02 2006